Special

MmuINT0179263 @ mm9

Intron Retention

Gene
ENSMUSG00000033961 | Zfp446
Description
zinc finger protein 446 [Source:MGI Symbol;Acc:MGI:2442185]
Coordinates
chr7:13567195-13571065:+
Coord C1 exon
chr7:13567195-13567276
Coord A exon
chr7:13567277-13567467
Coord C2 exon
chr7:13567468-13571065
Length
191 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
GAACGTTCTTTCCACCCTAGCAA
3' ss Score
5.99
Exon sequences
Seq C1 exon
GAGTGGGGCCTGTTGGACTCATCACAAAAAGAGCTGTGCTGGGGTGTGATGCCGGAGAAGTACGACACAGTGGTGTCCCAGG
Seq A exon
GTGAGGATCAATGGCCTTCCCTGTCCCATCCTCCACACACCTCCCACGTGTACTAGGCCCTCACTGGGGCTCCCAGTGCAGTGGCCCAGCATCCGGCTGCATCTCTCTTCTACCAAAAGGTTCCCATCCCCATACTTTTGTGTAAGCCCCCATGTGTCCAAGCCCCCAAATGAACGTTCTTTCCACCCTAG
Seq C2 exon
CAAGCCTGCCGCTGCTACAGCCAGAGACACATGTTGACTCTGAGCTGAGACCAAAACAGGAGATGCCACACGAAGGACCAGAATCCCTCCGGAGCCATCCCCCAGAAGTGGGAGCCATTGCAGATCCAAGGCTAGTTCAAGCCACTCCAAGTGAAAGGCAGAGCCCTTGCAAGGACCCTTCAGTCTTGTCTCCCACACCACTGCTTGAAGCCCCAGCGAGGCCCACACCTCGGAAGCTGTACGTTTGTGAGCAGTGTGGCCTCAGCTTTGACTGGAAGTCCGTTTTCATCATCCACCTCCGCACACACACGAGAGGGCCAGGCCTGGAGAGACCATCACAGGTGGCCCGGGAGCCGGCCATGAAGCGCTCCCCTGGCCTTCGGGGATACACATGCGTGGAGTGTGGGCGCAGCTTCAGCTGGAAGTCACAGCTGGTCATCCACCGCAAGAGCCATGCAGGCCAGCGGCGCCACTTCTGCCGCGACTGTGGCTGTAGCTTTGACTGGAAGTTTCAGCTGGTCATTCACAGGAAGATCCACCAGCCAGAGGGTCCATGAGTAGCTGGAGAGGCATGTCTCACCTTGGATTCCTCCATCCCCTAATGCACCACTTTAGCATCCTCTCTAGCCAAGAGGAGGTTCTAAGGTACCCCAAATAGGTCAGGGATTGCAAGAAGATTGCCCTGTCCAACACCAGACTATCCAGTGTAAGGAGAAGAGGCTAGTCCCTTCCTTTGGCCCCTGCTTTGTGGAGCCAGGCCTGGGTTCGATGACTAACCTATCCAGCTTGTGCAAAAGGTGGACACTCCCTACTTCAGGATGCTCAGAAATTGCCTCAGGTCCCTCCTTGCAGTGGCTGGGCAAGAAGTCTCTGTGGAAGGTACTGGAAACCACAGTTGCCTTTCTCCCCTGCTGCATGTGACCCTTAGACAAACATGCTAGATTTGTTTGTTTTGTTTTGTTTTTTGAGACAGGGTTTTTTCTGTGTAACCCTGGCTATCCTGGAACTTACTCTGAAGACCAGGCTGGCCTTGAACTCAGAAATTCACCTGCCTCTGCCTCCCAAGTGCTGGAATTAAAGGCATGTGCCACCACTGCCTGGCTAACATGGTAGATTTTTAATGTAAGTTATACGTCTATAACAATTTCTAAGTAAAACTCCTGACTTCTAGCTTCCATTGACCAAAAGAGCAGCCGTGTGTGCTGGCTAGCAGACTACAGGAACCACAGGGCAGCTGAGCCCTAAAAGGCCTAATTAGTTACTTCTCTCCTCCAGCCTACCTAGTTTCCTGACTACACACATTGCTCCCCACCCGCCCTGGCCTTTGAACTCCTGAACTTGAACTTGGATGAACAACTGACTCTCCTTTGGGTGCATGAGAGCACATGAGTGGATTCTGAGAAGTTAGATAACCCATGGGTACCTCAGGCCATGCATGCTTCTGGGTGAAGGCTACACCGCACAATGGCCAGTTAAACTGGAAGACAAAGGGTCATTCCTTGATGCCCAGGGAACTGTGACCCTCTTAACAATCACTCAGAATTTTTCAGTGCATGGTGGCCTACTAACTCTGCCTGTAAACTAGGTAGAGCAAAACAGATTTACTTACTAATTGTTCCAGTGTCAAAGCACTGAAGCATGTCTCATTAGATCAAAGACAGACTTACCCTGGGAGCTACCCGAGACCCTTGGCTTAGGACCTCTTTTTCCATCTGCTTAAAGAGCCTTTGAATGGCATGGGTCCCCTTAGATATTCCAGGGTGATCACCTGAAGCTCAGGTGATGAGATGGGAGCTTTTCTTTTGTTTGAGACAGGGTCTCCTAATGCAGCAGCTGCTGCCTCTAACTGGTGATCCTCCTGTCTCAGCTTCCTATGTGTTGGAACTATAGGCTTGTACCACCAAGCCCAGGTTGGTATTTTAAACTCTCTGTATATATGTTTAAGACAGTCTCACTTTAATGCCCTCAAACTATCTGTAGTCCTTCAACCTCAGCCCCTGAGTGTTGGAATTAAAGTTGTGTGTCACTGCGCCAGACTAAGACTTTAAATACTTTTGATTTTAAAATTTCGAACTATGGAGCAGGATTCAGTGCTGTAGGCAGATCTCTGTTAGTTTGAGGTCAGATTGCTTTGCATAGTGTGTTCCAGGACAGCCAGGGGCTATTGTGAGACCCTGTCTTAAAAATAAGTAAAGAGAAAAAAAATAAGTAAAGAAATAAGCAAATAAATTCTGCAGATGGGCACATCAAAGTGTCGTCTAGAAACCTGAGTTTTCAACACTGTCCATTTGTGCTCACTAATCCAGTTTGTTGTTCTAGGGGTGTGTGGGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTGTGTGTGTGTTTACGTACATGGAAGCCAGAAGAGAGTATCAGGGTCTTCTACTTAGTCACCTCTGCTTGTTAATGTCCATCCTGGAATCCAAACTGCAGTGACAGACTTGAACTCTGGCTCCGATGACTTCACATCAAGCGCTTTTAACTACTGAATCATGTCTCCAGTTCATGACATTATTGAAGCACTTGCTTCAGTCTGAGCCCCTCCTTGCTGCTCCCATGTGCCTCTTCCTTCATGTCCCTGTTCTACCTGCCCCTGCTCATGAGTAGTTTGAGTTTTCATGTGTTCCTTAGACTGCTTGCCCATTCATTATATTTGTCCTAGACAACTGAAGAACAGTGTCAGTTCCTACAGCAAGTTCCAGAACCTGATCTTCATAGGTTTTGTTTGTTTGTTCTTTTGGAGGGGAGCTGAAATGATCTTTCCATATAACCCAAGCCTGCCCTCAGCTTCTTTTTATTTAGTGTGCACGTGCACACACACATCTGCATCAGTTTGCATTTACCATATACATGCACAGCACCAACAGAGGTCATAAGACTAAAATCCCCTGTACTGGAGCTACAGGTGGTTGTGAGCCACCATATGGCTGCTTGGAGCTGAACCAAGGTTGACTGCAGGGTCAGCAAGTGGTTTTCAACACTGAGCCATCTCTCCAGCCCCTTCCTTACCTTAAGTTCTTGATCCTTTTTTAGTTTTGTTTTTTTGAGACAGGGTTTCTCTAACAGTCCTGGCTGTCCTGGAAGTTTATGGACTGCTGGCCTTAAACTCACAGGTGTTCACCAGACTCTGCCATTTGTGTGCTAAGATTAAAGGTATGCACCAGAAGGAAAACTACACACACACACACATACACACACACACACACACTGTGTGAACAGTGTTCTTTCTGTCTGTAGACCTGCAGGTCAGAAGAGGGCACCAGATCTCATTATAGATGGTTATGGGTTACCATATGGTTGCTATGAATTGAACTCTGGACCACTGGAAGAATAGCCAGTGCTCTTAACCTCTGAGCCATCTCTCCAGCCCAAGACTGTCTTAATTGTCAAACCATCTGTGTTTGTCATAGTTGGTCATGGAGCAAACCTGTAATCCTAGCAGGCGGGACGATCAGGAGTTCAAGGTCTTTCACAGCTACATAGCAGGTTCCAGCCTGTGTTAACATGAAATCCTGTCTGATAAAACAACCTCAAAATAAAACAAAGTAATAAAATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033961-Zfp446:NM_001168561:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.136 A=NA C2=0.489
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0135222=KRAB=PD(69.2=58.7)

							
A:
NA

							
C2:
PF0135222=KRAB=PD(0.1=0.0),PF0009621=zf-C2H2=WD(100=12.4),PF0009621=zf-C2H2=WD(100=12.4)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000039073





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000104176, ENSMUSP00000104177, ENSMUSP00000104178
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr19:58479728-58479929 
ALTERNATIVE
HsaINT0187288
(ZNF446)
Human
(hg19)
chr19:58991095-58991296 
ALTERNATIVE
HsaINT0187288
(ZNF446)
Rat
(rn6)
chr1:65597660-65597865 
ALTERNATIVE
RnoINT0000338
(AABR07002065.1)
Cow
(bosTau6)
chr18:65909775-65909902 
BtaINT0165513
(ZNF446)
Chicken
(galGal4)
chr11:462890-463077 
Chicken
(galGal3)
chrUn_random:38586677-38586865 
GgaINT0002480
([1])
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
GTGTGATGCCGGAGAAGTACG

				
R: 
CTTCAAGCAGTGGTGTGGGAG

				
Band lengths: 
249-440

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • Pre-implantation embryo development
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types






Retrieved from "https://vastdb.crg.eu/wiki/Special:VastDB"